HomeAboutRankingsData Sources
Β© 2026 GeneE
🧬
GeneE
25 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
PAX2
paired box 2
Chromosome 10 Β· 10q24.31
NCBI Gene: 5076Ensembl: ENSG00000075891.24HGNC: HGNC:8616UniProt: A0A9L9PXU6
189PubMed Papers
22Diseases
0Drugs
140Pathogenic Variants
FUNCTIONAL ROLE
Transcription Factor
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
cis-regulatory region sequence-specific DNA bindingDNA bindingpositive regulation of epithelial cell proliferationcentriolar satelliterenal coloboma syndromefocal segmental glomerulosclerosis 7focal segmental glomerulosclerosisneurodegenerative disease
✦AI Summary

PAX2 is a transcription factor critical for development of the urogenital tract, eyes, and central nervous system 1. It functions as a sequence-specific DNA-binding transcription factor that regulates gene expression during kidney cell differentiation and metanephric development, with particular importance in ureteric bud morphogenesis and branching 2. PAX2 also suppresses apoptosis and reactive oxygen species production in developing tissues [GO annotations]. Pathogenic PAX2 mutations cause renal coloboma syndrome (papillorenal syndrome), an autosomal dominant condition characterized by optic nerve dysplasia and renal hypodysplasia affecting approximately 50% of clinically suspected cases 34. Mutations can also contribute to congenital abnormalities of the kidney and urinary tract (CAKUT) and are associated with focal segmental glomerulosclerosis (FSGS), where renal dysfunction and proteinuria are more severe in PAX2-mutant patients 15. Additionally, PAX2 loss-of-function is implicated in endometrial intraepithelial neoplasia, with PAX2 aberrant expression detected in 81.1% of cases and useful as a diagnostic marker when combined with PTEN and Ξ²-catenin 6. PAX2 mutations are also associated with neurodevelopmental disorders including intellectual disability, epilepsy, and autism spectrum disorders 7.

Sources cited
1
PAX2 role in kidney cell differentiation
PMID: 24676634
2
PAX2 mutations associated with kidney malformations and CAKUT
PMID: 22138676
3
PAX2 mutations in renal coloboma syndrome affecting ~50% of cases
PMID: 21654726
4
PAX2 mutations detected in renal coloboma syndrome with variable ocular and renal phenotypes
PMID: 11581073
5
PAX2 mutations associated with more severe kidney dysfunction and focal segmental glomerulosclerosis
PMID: 26571382
6
PAX2 aberrant expression in 81.1% of endometrial intraepithelial neoplasia cases
PMID: 34545858
7
PAX2 mutations associated with neurodevelopmental disorders including intellectual disability and epilepsy
PMID: 34908837
Disease Associationsβ“˜22
renal coloboma syndromeOpen Targets
0.84Strong
focal segmental glomerulosclerosis 7Open Targets
0.81Strong
focal segmental glomerulosclerosisOpen Targets
0.68Moderate
neurodegenerative diseaseOpen Targets
0.49Moderate
genetic disorderOpen Targets
0.49Moderate
Retinal dystrophyOpen Targets
0.42Moderate
obesityOpen Targets
0.42Moderate
Abnormality of the skeletal systemOpen Targets
0.41Moderate
congenital anomalies of kidney and urinary tract 1Open Targets
0.40Weak
familial idiopathic steroid-resistant nephrotic syndromeOpen Targets
0.39Weak
overnutritionOpen Targets
0.37Weak
congenital hydronephrosisOpen Targets
0.35Weak
steroid-resistant nephrotic syndromeOpen Targets
0.35Weak
congenital anomaly of kidney and urinary tractOpen Targets
0.35Weak
colobomaOpen Targets
0.35Weak
Glomerular sclerosisOpen Targets
0.34Weak
hypertensionOpen Targets
0.33Weak
major salivary gland cancerOpen Targets
0.33Weak
diabetes mellitusOpen Targets
0.32Weak
hemolytic anemiaOpen Targets
0.32Weak
Focal segmental glomerulosclerosis 7UniProt
Papillorenal syndromeUniProt
Pathogenic Variants140
NM_000278.5(PAX2):c.76dup (p.Val26fs)Pathogenic
Renal coloboma syndrome|not provided|Focal segmental glomerulosclerosis 7|Focal segmental glomerulosclerosis 7;Renal coloboma syndrome|Congenital anomaly of kidney and urinary tract|Steroid-resistant nephrotic syndrome;Focal segmental glomerulosclerosis|PAX2-Related Disorder|Glomerular sclerosis
β˜…β˜…β˜†β˜†2026β†’ Residue 26
NM_000278.5(PAX2):c.685C>T (p.Arg229Ter)Pathogenic
not provided|Focal segmental glomerulosclerosis 7|Renal coloboma syndrome|Focal segmental glomerulosclerosis 7;Renal coloboma syndrome|PAX2-Related Disorder
β˜…β˜…β˜†β˜†2025β†’ Residue 229
NM_000278.5(PAX2):c.76del (p.Val26fs)Pathogenic
Renal coloboma syndrome|Focal segmental glomerulosclerosis 7;Renal coloboma syndrome|PAX2-Related Disorder|Focal segmental glomerulosclerosis 7|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 26
NM_000278.5(PAX2):c.310C>T (p.Arg104Ter)Pathogenic
PAX2-Related Disorder|Renal coloboma syndrome|Renal coloboma syndrome;Focal segmental glomerulosclerosis 7|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 104
NM_000278.5(PAX2):c.250G>A (p.Gly84Ser)Pathogenic
Renal coloboma syndrome;Focal segmental glomerulosclerosis 7|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 84
NM_000278.5(PAX2):c.187G>A (p.Gly63Ser)Pathogenic
not provided|Renal coloboma syndrome
β˜…β˜…β˜†β˜†2025β†’ Residue 63
NM_000278.5(PAX2):c.890C>G (p.Ser297Ter)Pathogenic
Inborn genetic diseases|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 297
NM_000278.5(PAX2):c.221_226dup (p.Glu74_Thr75dup)Pathogenic
Renal coloboma syndrome|Renal coloboma syndrome;Focal segmental glomerulosclerosis 7|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 74
NM_000278.5(PAX2):c.791del (p.Gln264fs)Pathogenic
Focal segmental glomerulosclerosis 7|Focal segmental glomerulosclerosis 7;Renal coloboma syndrome|Renal coloboma syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 264
NM_000278.5(PAX2):c.206T>C (p.Leu69Pro)Likely pathogenic
Congenital anomalies of kidney and urinary tract 1|Focal segmental glomerulosclerosis 7
β˜…β˜…β˜†β˜†2024β†’ Residue 69
NM_000278.5(PAX2):c.226G>A (p.Gly76Ser)Pathogenic
Renal coloboma syndrome|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 76
NM_000278.5(PAX2):c.343C>T (p.Arg115Ter)Pathogenic
Renal coloboma syndrome|not provided|Renal coloboma syndrome;Focal segmental glomerulosclerosis 7
β˜…β˜…β˜†β˜†2024β†’ Residue 115
NM_000278.5(PAX2):c.239C>T (p.Pro80Leu)Pathogenic
Focal segmental glomerulosclerosis 7;Renal coloboma syndrome|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 80
NM_000278.5(PAX2):c.69del (p.Val26fs)Pathogenic
not provided|Focal segmental glomerulosclerosis 7;Renal coloboma syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 26
NM_000278.5(PAX2):c.71G>T (p.Gly24Val)Likely pathogenic
Focal segmental glomerulosclerosis 7;Renal coloboma syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 24
NM_000278.5(PAX2):c.418C>T (p.Arg140Trp)Pathogenic
Renal coloboma syndrome;Focal segmental glomerulosclerosis 7|PAX2-Related Disorder
β˜…β˜…β˜†β˜†2024β†’ Residue 140
NM_000278.5(PAX2):c.212+1G>TPathogenic
Renal coloboma syndrome;Focal segmental glomerulosclerosis 7|Focal segmental glomerulosclerosis 7
β˜…β˜…β˜†β˜†2023
NM_000278.5(PAX2):c.226G>C (p.Gly76Arg)Likely pathogenic
not provided|Focal segmental glomerulosclerosis 7|See cases|Renal coloboma syndrome|PAX2-Related Disorder
β˜…β˜…β˜†β˜†2023β†’ Residue 76
NM_000278.5(PAX2):c.869del (p.Pro290fs)Likely pathogenic
Focal segmental glomerulosclerosis 7
β˜…β˜…β˜†β˜†2023β†’ Residue 290
NM_000278.5(PAX2):c.616+5648T>CPathogenic
not provided|Renal coloboma syndrome;Focal segmental glomerulosclerosis 7
β˜…β˜…β˜†β˜†2022
View on ClinVar β†—
Related Genes
PAXIP1Protein interaction98%TLX1Protein interaction95%LMX1BProtein interaction88%NPHS1Protein interaction88%SIX2Protein interaction86%EN1Protein interaction84%
Tissue Expression6 tissues
Brain
100%
Liver
55%
Bone Marrow
18%
Ovary
0%
Lung
0%
Heart
0%
Gene Interaction Network
Click a node to explore
PAX2PAXIP1TLX1LMX1BNPHS1SIX2EN1
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt Q02962
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.45Moderately Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.27 [0.17–0.45]
RankingsWhere PAX2 stands among ~20K protein-coding genes
  • #2,271of 20,598
    Most Researched189 Β· top quartile
  • #540of 5,498
    Most Pathogenic Variants140 Β· top 10%
  • #2,517of 17,882
    Most Constrained (LOEUF)0.45 Β· top quartile
Genes detectedPAX2
Sources retrieved25 papers
Response timeβ€”
πŸ“„ Sources
25β–Ό
1
Reliable Identification of Endometrial Precancers Through Combined Pax2, Ξ²-Catenin, and Pten Immunohistochemistry.
PMID: 34545858
Am J Surg Pathol Β· 2022
1.00
2
Renal dysplasia.
PMID: 25822765
Arch Pathol Lab Med Β· 2015
0.90
3
Endometrial intraepithelial neoplasia.
PMID: 24678678
Arch Pathol Lab Med Β· 2014
0.80
4
Expression of the PAX2 gene in human fetal kidney and Wilms' tumor.
PMID: 1378753
Cell Growth Differ Β· 1992
0.76
5
PAX2 in human kidney malformations and disease.
PMID: 22138676
Pediatr Nephrol Β· 2012
0.70